miRNA display CGI


Results 1 - 17 of 17 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
11477 3' -53.8 NC_003085.1 + 20527 0.66 0.803743
Target:  5'- -aCGGCGU--GUUGA--UGUUGGGGCg -3'
miRNA:   3'- gaGUCGCGcuUAGCUaaGCAGCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 42560 0.66 0.784135
Target:  5'- aUgAGCGgGAagcgGUCGGggagCGuaUCGGGGCu -3'
miRNA:   3'- gAgUCGCgCU----UAGCUaa--GC--AGCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 492 0.66 0.784135
Target:  5'- aUCAGCGCGGAgaUGAaggCG-CGcGGGCc -3'
miRNA:   3'- gAGUCGCGCUUa-GCUaa-GCaGC-CCCG- -5'
11477 3' -53.8 NC_003085.1 + 37377 0.66 0.774085
Target:  5'- -aCGGCGgGAAacaucCGAcUCGUCacgccGGGGCa -3'
miRNA:   3'- gaGUCGCgCUUa----GCUaAGCAG-----CCCCG- -5'
11477 3' -53.8 NC_003085.1 + 28946 0.66 0.774085
Target:  5'- gUCAuGCGCgGAGUCGcgcUCGUCGcGGUa -3'
miRNA:   3'- gAGU-CGCG-CUUAGCua-AGCAGCcCCG- -5'
11477 3' -53.8 NC_003085.1 + 4682 0.66 0.774085
Target:  5'- -aCGGCGcCGAGUUGcgccUCGUCGGcGGa -3'
miRNA:   3'- gaGUCGC-GCUUAGCua--AGCAGCC-CCg -5'
11477 3' -53.8 NC_003085.1 + 36525 0.66 0.762858
Target:  5'- -gCGGCGCGGAcgguccucagaaaUCGAUUCuGgcggccguggCGGGGUc -3'
miRNA:   3'- gaGUCGCGCUU-------------AGCUAAG-Ca---------GCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 11537 0.67 0.743088
Target:  5'- ---cGCGCGuucGUCGAg-CGcCGGGGCc -3'
miRNA:   3'- gaguCGCGCu--UAGCUaaGCaGCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 41998 0.67 0.732513
Target:  5'- -cCAGCGUGAGgcgCGAcgCccacCGGGGCa -3'
miRNA:   3'- gaGUCGCGCUUa--GCUaaGca--GCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 8542 0.68 0.678337
Target:  5'- uCUCGGCGCGcggCGAgcUCGUCacGGCa -3'
miRNA:   3'- -GAGUCGCGCuuaGCUa-AGCAGccCCG- -5'
11477 3' -53.8 NC_003085.1 + 42724 0.68 0.645206
Target:  5'- cCUCAgGCGUGGg------CGUCGGGGCg -3'
miRNA:   3'- -GAGU-CGCGCUuagcuaaGCAGCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 32557 0.69 0.633016
Target:  5'- gCUCAGCgacaugaGCGAGUUGGcggaggCGagGGGGCu -3'
miRNA:   3'- -GAGUCG-------CGCUUAGCUaa----GCagCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 45420 0.69 0.62304
Target:  5'- uUCGGCGCGAGagCGAcagccucuuccUUCGagucgaagccCGGGGCg -3'
miRNA:   3'- gAGUCGCGCUUa-GCU-----------AAGCa---------GCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 11098 0.69 0.62304
Target:  5'- gUCuGCGcCGAGU-GAcuucuccgccUUCGUUGGGGCg -3'
miRNA:   3'- gAGuCGC-GCUUAgCU----------AAGCAGCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 1915 0.69 0.611964
Target:  5'- uUCAGCGCGcugCGcaUCGcUCGcGGGCu -3'
miRNA:   3'- gAGUCGCGCuuaGCuaAGC-AGC-CCCG- -5'
11477 3' -53.8 NC_003085.1 + 35921 0.7 0.57888
Target:  5'- cCUCGGUGUGAAcc----CGUCGGGGUa -3'
miRNA:   3'- -GAGUCGCGCUUagcuaaGCAGCCCCG- -5'
11477 3' -53.8 NC_003085.1 + 16864 1.13 0.000796
Target:  5'- gCUCAGCGCGAAUCGAUUCGUCGGGGCa -3'
miRNA:   3'- -GAGUCGCGCUUAGCUAAGCAGCCCCG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.